> This contradicts everything we have learned about nature.

It doesn't contradict anything. It simply means that there is a gap in our current understanding, which may (or may not [1]) be scientifically explained in the future.

The default reflex of the opponents of "the hard question" (i.e. those who deny the existence of such a question) is to attach a religious or spiritualist meaning to it, which is far from the truth. It's a question that arises from scientific curiosity that we hope to answer one day.

[1] The "may not" part does not imply that there is something magical or metaphysical about it. There are things that we may not ever answer, like "do parallel universes exist" or "was there another universe before the big bang".